Sequence
atgc intronic sequence ATGC exonic sequenceGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattccttcaaatgtgcaacacattaatagcaagctttccttcaaattctggcaaacccttacttaatgcttcaaatgcacaaagttat...
Basic information
species | Glycine max |
transcript | GLYMA10G10990.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 5'ss of exon 12
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatag---------agcattccttcaaat--------gtgcaacacattaatagcaagctttccttcaaattctggcaaacccttacttaatg--------cttcaaatgcacaaagttat---------------------------------------------------
|| | ||||||||||| || ||||| || ||||| |||||||| |||||||| || || ||||| | ||||||||||||||||| || ||||||||||||||| | | ||| || ||| || | ||| ||| ||| | | ||| || | || | || | ||| |||| | |
GGCTTGTACTGTGTTGGCGACAGCTGTTTTCCTGGGCAAGGTGTAATTGCTGTGGCATTTTCAGGGATCATGTGTGCTCATCGAGTTGCAGCTGATATTGgtaagttcagattccactaacatccccctaaaatgaactgagtttgaaggattgggagctttatttatgttagggtcttagggactaagaagtagagagatttgtctgctgatgaacaacataagctgatattggcagaaaaatgacgtttgtttgctgctttgatcctcatccag
upper sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G108457_T02 (Zea mays), 5'ss of exon 12
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattccttcaaatgt-gcaacacattaatagc--aagctttccttcaaattctggcaaacccttacttaatgcttcaaatgcacaaagttat-------------------------------------------------------------------------
|| ||||||||||||||||| ||||| || || ||||||||||| || |||||||| |||||||| | ||||| ||||| ||||| ||||| |||||||||||| || || || ||| | ||| ||||| || |||| | || | | | | ||| |||| | | | || |
GGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaa--ttttactgtgtctgtcactgaacagggatagcttaatgtttcagcaagatagaattagtcacgtgcttgctgctaggtct-tagagagctgaactctcgacgaacaatgctacgagaatggttcgtgactcacaatttctttttactgctttacccttattccag
upper sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G106531_T02 (Zea mays), 5'ss of exon 12
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattc-cttcaaatgtgca-acacattaatagc--aagctttccttcaaattctggcaaacccttacttaatgc----ttcaaatgcacaaagttat--------------------------------------------
|| ||||||||||| ||||| ||||| ||||| || |||||||| || |||||||| |||||||| | ||||||||||| ||||| ||||| |||||||||||| | || ||| || | ||| | ||| ||||| || ||| | | | | | ||| || |||| | | | | | | |
GGCCTTTACTGTGTCGGTGACAGCTGTTTCCCCGGGCAAGGTGTCATAGCTGTAGCATTCTCAGGGATCATGTGTGCTCACCGAGTTGCTGCAGATATTGgtaagttccagttttcactgcgtctgtccctgaacagggatagcttaatggttcagtaagacagaattagtcgcttgtttgatgccaggtcttagagagtagaactcttgactcgcaatttctttttttttactgctttacccttcttccag
upper sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 5'ss of exon 12
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattccttcaaatgtgcaacacattaa-tagcaagctttccttcaaat---tctggcaaacccttacttaatgcttcaaatgcacaaagttat
||||| ||||| || || ||||| || || ||||| || || ||||| ||||| ||||| |||||||| |||||||||||||| |||||||||||||||||| ||| | || | || ||||| | |||| ||| | | || || || | || | | |||| || || |
GGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTGCTGATATTGgtgagaaaatgccatatttt-----tgcaatatgttaaatagaatgggttgattattatgagcataagaagcaatcacttttgtgttttgatttttag------
upper sequence: GLYMA10G10990.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 5'ss of exon 12
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattccttcaaatgtgcaacacattaatagcaagctttccttcaaattctggcaaaccc-ttacttaatgcttcaaatgcacaaagttat----
||||| ||||||||||| ||||||||||| || |||||||||||||| |||||||| || ||||| || |||||||| || ||||| ||||| |||||||||||| | | || | ||| | ||| | | || | | || | | || || || | | || | | | |||
GGTCTCTACTGTGTTGGGGATAGCTGCTTTCCAGGACAAGGTGTTATAGCTGTAGCCTTTTCAGGTGTAATGTGTGCACACCGAGTGGCTGCAGATATTGgtaagctggg-----ttttagagactgctttattgtaaaaattgcttggccattgacttgaaatatatccattgatttcttgtgaaacttgcctgaactattttaMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|31457295|gb|CD399323.1|CD399323EST: TGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTG GGCTGGAGAAGAAGTCACCTGTGTTGGATTCCATGCTGCTTCGGTTGCTTG
genomic: TGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagataga ... ctttaaatagGGCTGGAGAAGAAGTCACCTGTGTTGGATTCCATGCTGCTTCGGTTGCTTG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTGCTGATATTGgtaagatagagcattccttcaaatgtgcaacacattaatagcaagctttccttcaaattctggcaaacccttacttaatgcttcaaatgcacaaagttat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT